This study reports the presence of pathogenic bacteria in the drinking water of Iligan City Central School and Iligan City North 1 Central School. After the inoculation and identification, the bacteria found in drinking water sample from Iligan City Central School were identified as Klebsiella pneumonia, Enterobacter aerogenes, Escherichia coli, Klebsiella oxytoca and Salmonella sp. While in Iligan City North 1 Central School sample, E. coli, Salmonella sp. and Shigella sp. were found. In the body, these microorganisms can be pathogenic and has the ability to cause diseases if the immune system is low. A regular sanitation team from the local water district, non-government organizations and other private sectors must conduct evaluation in the public drinking water system of the said locality.